ClaMS: A Classifier for Metagenomic Sequences. Issue 2 (September 2011)

• Record Type: Journal Article
• Authors: Pati, Amrita; Heath, Lenwood; Kyrpides, Nikos; Ivanova, Natalia
• Is Part Of: Standards in genomic sciences. Volume 5:Issue 2(2011)
• Page Start: 248
• Page End: 253
• Publication Date: 2011-09
• Subjects: Genomics -- Periodicals; Genomics -- Periodicals; Genomics; Periodicals; 572.8605
• DOI: 10.4056/sigs.2075298
• Languages: English
• ISSNs: 1944-3277

Abstract

Abstract ClaMS — "Classifier for Metagenomic Sequences" — is a Java application for binning assembled contigs in metagenomes using user-specified training sets and initial parameters. Since ClaMS trains on sequence composition-based genomic signatures, it is much faster than binning tools that rely on alignments to homologs; ClaMS can bin ∼20, 000 sequences in 3 minutes on a laptop with a 2.4 GH× Intel Core 2 Duo processor and 2 GB RAM. ClaMS is meant to be a desktop application for biologists and can be run on any machine under any Operating System on which the Java Runtime Environment can be installed.